Fig. 3: Generation of complex structural variants (SVs) in one or two cell cycles.
From: Cell-cycle dependent DNA repair and replication unifies patterns of chromosome instability
a Overview of the model settings to validate the role of cell cycle in forming complex SVs. b The number of chromosome fusions in a run of simulation under different parameter settings in one or two cell cycles. Each box plot contains 50 data points, corresponding to 50 simulations under the same parameter setting. c The number of cells with chromothripsis on chr1 under different parameter settings in one or two cell cycles. d The number of extrachromosomal circular DNAs (ecDNAs) in a cell under different parameter settings in one or two cell cycles. Each box plot contains 100 data points, corresponding to 100 cells across 50 simulations under the same parameter setting. e The number of cells with seismic amplifications under different parameter settings in one or two cell cycles. The labels at the right of each plot indicate DSB rates per cycle. For each run, we consider the two cells at the end of either the first or second cycle depending on the number of cycles (indicated by the grey cells in (a). The box plots show the median (centre), 1st (lower hinge), and 3rd (upper hinge) quartiles of the data; the whiskers extend to 1.5 times of the interquartile range (distance between the 1st and 3rd quartiles); data beyond the interquartile range are plotted individually. The significance levels of significant p-values from two-sided Wilcoxon tests are shown: * -- p < 0.05, ** -- p < 0.01, *** -- p < 0.001, **** -- p < 0.0001. The p-values were adjusted by Bonferroni correction for multiple pairwise tests. The two endpoints of the horizontal line below the p-value represent the two groups being compared. Source data are provided as a Source Data file.
